Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE38916

GEO first seen 2012

Intracellular and extracellular microRNAs expressed by HEK293T cells

Organism
Homo sapiens
Samples
4
Type
Non-coding RNA profiling by...
Submitted
2012-06-25

MicroRNAs (miRNAs) are a class of small RNA molecules that regulate expression of specific mRNA targets. They can be released from cells, often encapsulated within extracellular vesicles (EVs), and therefore have the potential to mediate intercellular communication. It has been suggested that certain miRNAs may be selectively exported, although the mechanism has yet to be identified. Manipulation of the miRNA content of EVs will be important for future therapeutic applications. We therefore wish...

Provenance — who produced it, who reused it

Linked to 2 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Deposited / produced by
David Simpson
Reused by

Deep data QC

67/100 · D

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

Data type / assay
bulk-RNA-seq
Organism
Homo sapiens
Metrics (value · how obtained)
n content pct 0.27 measured
pct q20 bases 100 measured
pct q30 bases 100 measured
gc content pct 44.7 measured
mean read length 40 measured
mean base quality 30 measured
adapter content pct 0 measured
duplication rate pct 92.55 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 67/100

The D grade is a transparent weighted average. Each metric below scored from 0–100% against the published bulk-RNA-seq thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 100 measured ×1 100%
mean base quality 30 measured ×0.6 33%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 92.55 measured ×0.4 0%
QC cost 27 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0